miRNA display CGI


Results 1 - 20 of 23 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
20554 3' -54.7 NC_004688.1 + 56488 0.65 0.924788
Target:  5'- gCCaGCGCUGcaggGUCAgggcgcgCCGGCGaagcucuagaagcUCAUCGg -3'
miRNA:   3'- -GGcCGCGAC----UAGUa------GGUCGC-------------AGUAGC- -5'
20554 3' -54.7 NC_004688.1 + 75352 0.66 0.919716
Target:  5'- gCCGGCgagaaggauguuGCcGAUCG-CCAG-GUCGUCGc -3'
miRNA:   3'- -GGCCG------------CGaCUAGUaGGUCgCAGUAGC- -5'
20554 3' -54.7 NC_004688.1 + 96796 0.66 0.910205
Target:  5'- cCCGGUGCaggUGAUcCGUCCAaucccacgcguacucGCGggcagCGUCGa -3'
miRNA:   3'- -GGCCGCG---ACUA-GUAGGU---------------CGCa----GUAGC- -5'
20554 3' -54.7 NC_004688.1 + 46750 0.66 0.907729
Target:  5'- cCCGGCGggccCUGAUCG-CCGGCG-CGa-- -3'
miRNA:   3'- -GGCCGC----GACUAGUaGGUCGCaGUagc -5'
20554 3' -54.7 NC_004688.1 + 37674 0.66 0.907729
Target:  5'- gCGGUGUUGAUCAUuUCGGUGaUCGcCGa -3'
miRNA:   3'- gGCCGCGACUAGUA-GGUCGC-AGUaGC- -5'
20554 3' -54.7 NC_004688.1 + 83374 0.66 0.907729
Target:  5'- -aGGCgGCUGAUCGUgcCCGGCugcugcuccUCGUCGa -3'
miRNA:   3'- ggCCG-CGACUAGUA--GGUCGc--------AGUAGC- -5'
20554 3' -54.7 NC_004688.1 + 9687 0.66 0.903941
Target:  5'- uUCGGCgagagccucgcgaagGCUGAUgCcgCCuucGGCGUCGUCa -3'
miRNA:   3'- -GGCCG---------------CGACUA-GuaGG---UCGCAGUAGc -5'
20554 3' -54.7 NC_004688.1 + 50045 0.66 0.894763
Target:  5'- gUGGCGCcgGAUCGaCCAGCG-CAa-- -3'
miRNA:   3'- gGCCGCGa-CUAGUaGGUCGCaGUagc -5'
20554 3' -54.7 NC_004688.1 + 82816 0.66 0.894763
Target:  5'- aUGGCGUgggcccgcAUCAUCCAGCGUU-UCa -3'
miRNA:   3'- gGCCGCGac------UAGUAGGUCGCAGuAGc -5'
20554 3' -54.7 NC_004688.1 + 10912 0.67 0.88792
Target:  5'- gCCGGCGCUGGUggCAgugaCCuGCGUgAUa- -3'
miRNA:   3'- -GGCCGCGACUA--GUa---GGuCGCAgUAgc -5'
20554 3' -54.7 NC_004688.1 + 20480 0.67 0.885117
Target:  5'- aCGGCGCgcuugcucugggcGAUCAUggugUCGGCGaCGUCGg -3'
miRNA:   3'- gGCCGCGa------------CUAGUA----GGUCGCaGUAGC- -5'
20554 3' -54.7 NC_004688.1 + 71520 0.67 0.873534
Target:  5'- gCGGCGCUugcacUCAUCCacgucGGCGUggaCGUCGa -3'
miRNA:   3'- gGCCGCGAcu---AGUAGG-----UCGCA---GUAGC- -5'
20554 3' -54.7 NC_004688.1 + 17608 0.67 0.873534
Target:  5'- gUCGGCGC-GAUCGgcgcggCCGGCGcUCAa-- -3'
miRNA:   3'- -GGCCGCGaCUAGUa-----GGUCGC-AGUagc -5'
20554 3' -54.7 NC_004688.1 + 65268 0.67 0.85825
Target:  5'- gUCGGUGCUGA-CAUUC-GCGcCGUUGa -3'
miRNA:   3'- -GGCCGCGACUaGUAGGuCGCaGUAGC- -5'
20554 3' -54.7 NC_004688.1 + 23923 0.67 0.857463
Target:  5'- -gGGCGCUGGcaacguugccgagUCcgCCGGCGaggccggcgaUCAUCGc -3'
miRNA:   3'- ggCCGCGACU-------------AGuaGGUCGC----------AGUAGC- -5'
20554 3' -54.7 NC_004688.1 + 63431 0.68 0.842116
Target:  5'- uCCGGCGCUGcAUUAUCuCGGCcgcguUCAcucuUCGa -3'
miRNA:   3'- -GGCCGCGAC-UAGUAG-GUCGc----AGU----AGC- -5'
20554 3' -54.7 NC_004688.1 + 78585 0.68 0.833747
Target:  5'- -gGGCGCUcaggGAUCAUCC-GCGgucCAUCc -3'
miRNA:   3'- ggCCGCGA----CUAGUAGGuCGCa--GUAGc -5'
20554 3' -54.7 NC_004688.1 + 97558 0.68 0.816446
Target:  5'- cUCGGCcgauGCcgcGGUCAUCCGGC-UCAUCa -3'
miRNA:   3'- -GGCCG----CGa--CUAGUAGGUCGcAGUAGc -5'
20554 3' -54.7 NC_004688.1 + 83524 0.7 0.750881
Target:  5'- uUGGCucGCaGcgCGUCCAGCG-CAUCGg -3'
miRNA:   3'- gGCCG--CGaCuaGUAGGUCGCaGUAGC- -5'
20554 3' -54.7 NC_004688.1 + 53177 0.7 0.72096
Target:  5'- gCCGGCGagUGAUgGUCCAGCG-CGa-- -3'
miRNA:   3'- -GGCCGCg-ACUAgUAGGUCGCaGUagc -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.